Why sequence full genomes?

• Pangenome analysis
• Gene content

Pangenomes

Sequencing technologies

(Link to ‘assembling the perfect genome’)

Illumina error profile

Genome assemblies through time

The steps involved

Workflow overview

Bactopia

Our dataset (from Ranjit et al. in prep, Ohio State)

• Pseudomonas syringae causes disease in a wide range of host plants, from Solanaceae and Leguminosae plants to citrus and stone fruit trees.

• Pseudomonas syringae pv. syringae (Pss) is an emerging phytopathogen that causes Pseudomonas leaf spot (PLS) disease in pepper plants (Capsicum annuum var. annuum).

Currently, copper-based (copper sulfate or copper hydroxide) or streptomycin-based antimicrobials are used as chemical control methods for Pss in peppers. However, in recent years, the intensive application of copper-based antimicrobials to reduce PLS during the growing season has resulted in the emergence of copper-resistant strains of Pss, making copper-based antimicrobial agents less effective (8, 14).

• 16 Pss samples were isolated from pepper plants harboring characteristic PLS symptoms in Ohio between 2013 and 2021.

Variation in virulence

Variable genome

Phylogenetic tree